TFEA.ChIP
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see TFEA.ChIP.
Analyze Transcription Factor Enrichment
Bioconductor version: 3.9
Package to analize transcription factor enrichment in a gene set using data from ChIP-Seq experiments.
Author: Laura Puente Santamaría, Luis del Peso
Maintainer: Laura Puente Santamaría <lpsantamaria at iib.uam.es>
Citation (from within R, enter
citation("TFEA.ChIP")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("TFEA.ChIP")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("TFEA.ChIP")| TFEA.ChIP: a tool kit for transcription factor enrichment | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ChIPSeq, GeneRegulation, GeneSetEnrichment, ImmunoOncology, RNASeq, Sequencing, Software, Transcription, Transcriptomics |
| Version | 1.4.2 |
| In Bioconductor since | BioC 3.7 (R-3.5) (6 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.3) |
| Imports | GenomicRanges, IRanges, biomaRt, GenomicFeatures, grDevices, dplyr, stats, utils, R.utils, methods, org.Hs.eg.db |
| System Requirements | |
| URL |
See More
| Suggests | knitr, rmarkdown, S4Vectors, plotly, scales, tidyr, ggplot2, GSEABase, DESeq2, BiocGenerics, ggrepel, rcompanion, TxDb.Hsapiens.UCSC.hg19.knownGene |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | TFEA.ChIP_1.4.2.tar.gz |
| Windows Binary | TFEA.ChIP_1.4.2.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | TFEA.ChIP_1.4.2.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/TFEA.ChIP |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/TFEA.ChIP |
| Bioc Package Browser | https://code.bioconductor.org/browse/TFEA.ChIP/ |
| Package Short Url | https://bioconductor.org/packages/TFEA.ChIP/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |